PDF file - 172KB, A: Strategy for filtering and selecting the FPG signature. We selected those pr... more PDF file - 172KB, A: Strategy for filtering and selecting the FPG signature. We selected those probes that were common to the three types of fibroblasts with RMA-normalized values >4 (10,779 probes). By this means we eliminated many genes that either were not represented in any of the classes or whose expression values were so low that they could be confused with background noise. B: In a second step, we selected genes that fulfilled the condition: (logFC) NCF vs. CAF-PT >1.5 and CAF-PT vs. CAF-LM >1.5 (179 genes) and CAF-PT vs. NCF >1.5 and CAF-LM vs. CAF-PT >1.5 (98 genes), and with values of q<0.05. C: Unsupervised hierarchical standardized heatmap of the 277-gene signature in the 34 fibroblasts samples. Columns represent fibroblast samples and are arranged along the X axis; genes are arranged along the Y axis. The sequence of normal colonic fibroblasts (NCF) > carcinoma-associated fibroblasts from the primary tumour (CAF-PT) > carcinoma-associated fibroblasts from the liver metastasis (CAF-LM) had been assimilated to cancer progression. Blue and red indicate overexpression and underexpression, respectively. D: Signature optimization by PAM analysis in the training set (34 fibroblast samples), showing the minimum 25 genes providing the lowest misclassification error (Best 25 genes out off 277 gene signature). PAM selects a set of probes according to a threshold value, usually containing those probes that minimize the cross-validation error. The 25 genes are those selected by PAM analysis from the 277 probes common to the three types of fibroblasts but which were differentially expressed following the signature definition log n-fold change (logFC) values of NCF vs. CAF-PT >1.5 and CAF-PT vs. CAF-LM >1.5 (179 genes) and CAF-PT vs. NCF >1.5 and CAF-LM vs. CAF-PT >1.5 (98 genes), and with values of q<0.05. E: For the 25 genes described in C the misclassification error (confusion with the CAF-PT class) was zero for NCF and CAF-LM classes. F: Representative western blot of selected genes (SLC7A2, ARHGDIB, TFGB2) in four samples of each fibroblast class. Tubulin was used to normalize expression (loading control). As clearly depicted in the graph SLC7A2, ARHGDIB and TGFB2 were overexpressed in CAF-LM vs CAF-PT and CAF-PT vs NCF.
PDF file - 39KB, PAM analysis (19-gene classifier). Genes are ordered in terms of contribution to... more PDF file - 39KB, PAM analysis (19-gene classifier). Genes are ordered in terms of contribution to the correct classification of a given sample as a recurrent or non-recurrent.
PDF file - 173KB, Overview and design of the development of the 277-signature, 25- and 19-gene cl... more PDF file - 173KB, Overview and design of the development of the 277-signature, 25- and 19-gene classifiers.
Facial emotion recognition is considered the foundation of effective social functioning, but it h... more Facial emotion recognition is considered the foundation of effective social functioning, but it has been found impaired in several clinical populations. How- ever, there are few validated tests to measure the ability. To the best of our knowledge, there is no validated measure in a Spanish population. We translated and validated Baron Cohen’s Face Test in a general Spanish population.
Esta memoria trata de la generalizacion de tecnicas clasicas del Analisis Multivariante discreto,... more Esta memoria trata de la generalizacion de tecnicas clasicas del Analisis Multivariante discreto, especialmente el Analisis de Componentes Principales y el Analisis de Correspondencias, Se divida en dos partes, ademas de un apendice que contiene un resumen en ingles. En la primera parte, se generaliza el concepto de las Componentes Principales de una matriz de datos discreta, al caso de una variable aleatoria continua y un proceso estocastico centrado asociado a ella. Mediante resultados de Analisis Matematico referentes a la descomposicion espectral de un nucleo simetrico, aplicado al nucleo de covarianza del proceso, se obtiene un conjunto de variables compuestas normalizadas, llamadas Direcciones Principales, de propiedades analogas a las Componentes Principales del caso discreto. Se estudian tambien resultados adicionales sobre este tema, como teoremas de expansion de nucleo de covarianza, metodos para obtener las Direcciones Principales mediante la resolucion de una ecuacion diferencial, formulas para la expresion de la covarianza entre funciones de variables aleatorias, y algunas desigualdades y series sobre las Direcciones Principales y su covarianza. En la segunda parte, se estudian las relaciones entre el Analisis de correspondencias, y su alternativa basada en la distancia de Hellinger, como metodos para estudiar las relaciones entre dos variables categoricas tabuladas en una matriz de correspondencias. El analisis del proceso que lleva de una tecnica a otra nos permite proponer una nueva alternativa, el Analisis de Correspondencias Parametrico, el cual incluye las dos tecnicas anteriores como casos particulares para los valores extremos de este parametro. Estudiamos la relacion de esta nueva tecnica con una distancia, una medida de comparacion con el Analisis de Correspondencias, el concepto de variabilidad geometrica y tests de independencia, y dos metodos para establecer el valor optimo de parametro
<p>*Not fullfilling criteria for hypomanic episode</p><p>** Without other sympt... more <p>*Not fullfilling criteria for hypomanic episode</p><p>** Without other symptoms of a panick attack</p><p>Adverse effects of DBS reported in the studies included in the meta-analysis.</p
PDF file - 172KB, A: Strategy for filtering and selecting the FPG signature. We selected those pr... more PDF file - 172KB, A: Strategy for filtering and selecting the FPG signature. We selected those probes that were common to the three types of fibroblasts with RMA-normalized values &gt;4 (10,779 probes). By this means we eliminated many genes that either were not represented in any of the classes or whose expression values were so low that they could be confused with background noise. B: In a second step, we selected genes that fulfilled the condition: (logFC) NCF vs. CAF-PT &gt;1.5 and CAF-PT vs. CAF-LM &gt;1.5 (179 genes) and CAF-PT vs. NCF &gt;1.5 and CAF-LM vs. CAF-PT &gt;1.5 (98 genes), and with values of q&lt;0.05. C: Unsupervised hierarchical standardized heatmap of the 277-gene signature in the 34 fibroblasts samples. Columns represent fibroblast samples and are arranged along the X axis; genes are arranged along the Y axis. The sequence of normal colonic fibroblasts (NCF) &gt; carcinoma-associated fibroblasts from the primary tumour (CAF-PT) &gt; carcinoma-associated fibroblasts from the liver metastasis (CAF-LM) had been assimilated to cancer progression. Blue and red indicate overexpression and underexpression, respectively. D: Signature optimization by PAM analysis in the training set (34 fibroblast samples), showing the minimum 25 genes providing the lowest misclassification error (Best 25 genes out off 277 gene signature). PAM selects a set of probes according to a threshold value, usually containing those probes that minimize the cross-validation error. The 25 genes are those selected by PAM analysis from the 277 probes common to the three types of fibroblasts but which were differentially expressed following the signature definition log n-fold change (logFC) values of NCF vs. CAF-PT &gt;1.5 and CAF-PT vs. CAF-LM &gt;1.5 (179 genes) and CAF-PT vs. NCF &gt;1.5 and CAF-LM vs. CAF-PT &gt;1.5 (98 genes), and with values of q&lt;0.05. E: For the 25 genes described in C the misclassification error (confusion with the CAF-PT class) was zero for NCF and CAF-LM classes. F: Representative western blot of selected genes (SLC7A2, ARHGDIB, TFGB2) in four samples of each fibroblast class. Tubulin was used to normalize expression (loading control). As clearly depicted in the graph SLC7A2, ARHGDIB and TGFB2 were overexpressed in CAF-LM vs CAF-PT and CAF-PT vs NCF.
PDF file - 39KB, PAM analysis (19-gene classifier). Genes are ordered in terms of contribution to... more PDF file - 39KB, PAM analysis (19-gene classifier). Genes are ordered in terms of contribution to the correct classification of a given sample as a recurrent or non-recurrent.
PDF file - 173KB, Overview and design of the development of the 277-signature, 25- and 19-gene cl... more PDF file - 173KB, Overview and design of the development of the 277-signature, 25- and 19-gene classifiers.
Facial emotion recognition is considered the foundation of effective social functioning, but it h... more Facial emotion recognition is considered the foundation of effective social functioning, but it has been found impaired in several clinical populations. How- ever, there are few validated tests to measure the ability. To the best of our knowledge, there is no validated measure in a Spanish population. We translated and validated Baron Cohen’s Face Test in a general Spanish population.
Esta memoria trata de la generalizacion de tecnicas clasicas del Analisis Multivariante discreto,... more Esta memoria trata de la generalizacion de tecnicas clasicas del Analisis Multivariante discreto, especialmente el Analisis de Componentes Principales y el Analisis de Correspondencias, Se divida en dos partes, ademas de un apendice que contiene un resumen en ingles. En la primera parte, se generaliza el concepto de las Componentes Principales de una matriz de datos discreta, al caso de una variable aleatoria continua y un proceso estocastico centrado asociado a ella. Mediante resultados de Analisis Matematico referentes a la descomposicion espectral de un nucleo simetrico, aplicado al nucleo de covarianza del proceso, se obtiene un conjunto de variables compuestas normalizadas, llamadas Direcciones Principales, de propiedades analogas a las Componentes Principales del caso discreto. Se estudian tambien resultados adicionales sobre este tema, como teoremas de expansion de nucleo de covarianza, metodos para obtener las Direcciones Principales mediante la resolucion de una ecuacion diferencial, formulas para la expresion de la covarianza entre funciones de variables aleatorias, y algunas desigualdades y series sobre las Direcciones Principales y su covarianza. En la segunda parte, se estudian las relaciones entre el Analisis de correspondencias, y su alternativa basada en la distancia de Hellinger, como metodos para estudiar las relaciones entre dos variables categoricas tabuladas en una matriz de correspondencias. El analisis del proceso que lleva de una tecnica a otra nos permite proponer una nueva alternativa, el Analisis de Correspondencias Parametrico, el cual incluye las dos tecnicas anteriores como casos particulares para los valores extremos de este parametro. Estudiamos la relacion de esta nueva tecnica con una distancia, una medida de comparacion con el Analisis de Correspondencias, el concepto de variabilidad geometrica y tests de independencia, y dos metodos para establecer el valor optimo de parametro
<p>*Not fullfilling criteria for hypomanic episode</p><p>** Without other sympt... more <p>*Not fullfilling criteria for hypomanic episode</p><p>** Without other symptoms of a panick attack</p><p>Adverse effects of DBS reported in the studies included in the meta-analysis.</p
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